Schema for Map Contigs - Physical Map Contigs
  Database: hg19    Primary Table: ctgPos    Row Count: 249   Data last updated: 2009-05-11
Format description: Where a contig is inside of a chromosome.
fieldexampleSQL type info description
contig GL000001.1varchar(255) values Name of contig
size 257719int(10) unsigned range Size of contig
chrom chr1varchar(255) values Reference sequence chromosome or scaffold
chromStart 10000int(10) unsigned range Start in chromosome
chromEnd 267719int(10) unsigned range End in chromosome

Sample Rows
 
contigsizechromchromStartchromEnd
GL000001.1257719chr110000267719
GL000002.1153649chr1317719471368
GL000003.13323900chr15213683845268
GL000004.19224644chr1399526813219912
GL000005.116558170chr11331991229878082
GL000006.190908613chr130028082120936695
GL000007.1398739chr1121086695121485434
GL000008.1432327chr1142535434142967761
GL000009.1426764chr1143117761143544525
GL000010.1126477chr1143644525143771002

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.

Map Contigs (ctgPos) Track Description
 

Description

This track shows the locations of human contigs on the physical map. The underlying data is derived from the GRCh37 AGP file that accompanies this assembly. The contigs in this track are identical to those in the GRC Map Contigs track, the difference being the the contigs in the GRC Map Contigs track are named according to GRC. All contigs in this track are oriented to the "+" strand.

Methods

For human genome reference sequences dated April 2003 and later, the individual chromosome sequencing centers are responsible for preparing the assembly of their chromosomes in AGP format (see also: AGP File Specification). The files provided by these centers are checked and validated at NCBI, and form the basis for the AGP file that defines the physical map contigs.

For more information on the human genome assembly process, see NCBI Assembly Primer.